HEADER OXIDOREDUCTASE 09-JUN-13 4L4S TITLE STRUCTURAL CHARACTERISATION OF THE NADH BINARY COMPLEX OF HUMAN TITLE 2 LACTATE DEHYDROGENASE M ISOZYME COMPND MOL_ID: 1; COMPND 2 MOLECULE: L-LACTATE DEHYDROGENASE A CHAIN; COMPND 3 CHAIN: H, A; COMPND 4 SYNONYM: LDH-A, CELL PROLIFERATION-INDUCING GENE 19 PROTEIN, LDH COMPND 5 MUSCLE SUBUNIT, LDH-M, RENAL CARCINOMA ANTIGEN NY-REN-59; COMPND 6 EC: 1.1.1.27; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: LDHA, PIG19; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS GLYCOLYSIS, ANAEROBIC RESPIRATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.DEMPSTER,S.HARPER,J.E.MOSES,I.DREVENY REVDAT 3 04-JUN-14 4L4S 1 JRNL REVDAT 2 07-MAY-14 4L4S 1 TITLE REVDAT 1 30-APR-14 4L4S 0 JRNL AUTH S.DEMPSTER,S.HARPER,J.E.MOSES,I.DREVENY JRNL TITL STRUCTURAL CHARACTERIZATION OF THE APO FORM AND NADH BINARY JRNL TITL 2 COMPLEX OF HUMAN LACTATE DEHYDROGENASE. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 70 1484 2014 JRNL REFN ISSN 0907-4449 JRNL PMID 24816116 JRNL DOI 10.1107/S1399004714005422 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.19 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 23011 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.188 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.140 REMARK 3 FREE R VALUE TEST SET COUNT : 1183 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.30 REMARK 3 SHRINKAGE RADIUS : 1.11 REMARK 3 K_SOL : 0.34 REMARK 3 B_SOL : 17.59 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.420 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 43.37 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.14 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 4.55680 REMARK 3 B22 (A**2) : 4.55680 REMARK 3 B33 (A**2) : -9.11370 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.00000 REMARK 3 B23 (A**2) : -0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: chain 'H' and (resseq 1:20) REMARK 3 ORIGIN FOR THE GROUP (A): 31.2414 -53.0985 21.1450 REMARK 3 T TENSOR REMARK 3 T11: 0.7370 T22: 0.3290 REMARK 3 T33: 0.3497 T12: -0.0937 REMARK 3 T13: 0.0434 T23: -0.0681 REMARK 3 L TENSOR REMARK 3 L11: 2.6788 L22: 5.3061 REMARK 3 L33: 1.0011 L12: -2.1505 REMARK 3 L13: 1.2912 L23: 0.1265 REMARK 3 S TENSOR REMARK 3 S11: 0.7000 S12: 0.5343 S13: -0.6935 REMARK 3 S21: -1.2210 S22: -0.0594 S23: 0.2022 REMARK 3 S31: 0.3709 S32: 0.2905 S33: -0.5877 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: chain 'H' and (resseq 21:93) REMARK 3 ORIGIN FOR THE GROUP (A): 29.2822 -30.9323 14.6045 REMARK 3 T TENSOR REMARK 3 T11: 0.1199 T22: 0.1567 REMARK 3 T33: -0.0255 T12: 0.0315 REMARK 3 T13: 0.0079 T23: -0.0738 REMARK 3 L TENSOR REMARK 3 L11: 1.2507 L22: 1.1624 REMARK 3 L33: 0.7026 L12: -0.1967 REMARK 3 L13: 0.5399 L23: 0.3102 REMARK 3 S TENSOR REMARK 3 S11: 0.0069 S12: 0.1439 S13: -0.1641 REMARK 3 S21: -0.1891 S22: 0.0130 S23: -0.0949 REMARK 3 S31: 0.1118 S32: 0.0303 S33: 0.0031 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: chain 'H' and (resseq 94:126) REMARK 3 ORIGIN FOR THE GROUP (A): 20.7178 -19.3603 -0.1036 REMARK 3 T TENSOR REMARK 3 T11: 0.1551 T22: 0.2030 REMARK 3 T33: 0.0435 T12: -0.0003 REMARK 3 T13: 0.0790 T23: -0.0507 REMARK 3 L TENSOR REMARK 3 L11: 2.2429 L22: 6.4033 REMARK 3 L33: 6.3198 L12: -0.8245 REMARK 3 L13: -0.3268 L23: -2.8500 REMARK 3 S TENSOR REMARK 3 S11: 0.1243 S12: 0.2825 S13: 0.3243 REMARK 3 S21: -0.1548 S22: -0.0547 S23: -0.3269 REMARK 3 S31: -0.7603 S32: 0.1262 S33: -0.0644 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: chain 'H' and (resseq 127:308) REMARK 3 ORIGIN FOR THE GROUP (A): 13.9049 -11.2687 20.2937 REMARK 3 T TENSOR REMARK 3 T11: 0.0206 T22: 0.0516 REMARK 3 T33: 0.0194 T12: -0.0791 REMARK 3 T13: -0.0575 T23: -0.0452 REMARK 3 L TENSOR REMARK 3 L11: 0.5557 L22: 0.1047 REMARK 3 L33: 0.8918 L12: 0.0595 REMARK 3 L13: 0.0321 L23: 0.1334 REMARK 3 S TENSOR REMARK 3 S11: -0.0346 S12: 0.0575 S13: 0.1266 REMARK 3 S21: -0.0772 S22: 0.0002 S23: 0.0704 REMARK 3 S31: -0.1224 S32: -0.0113 S33: 0.0277 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: chain 'H' and (resseq 309:331) REMARK 3 ORIGIN FOR THE GROUP (A): 5.7884 -7.3159 5.7565 REMARK 3 T TENSOR REMARK 3 T11: 0.1748 T22: 0.1185 REMARK 3 T33: 0.0779 T12: -0.0196 REMARK 3 T13: -0.1048 T23: 0.0701 REMARK 3 L TENSOR REMARK 3 L11: 3.1187 L22: 3.9608 REMARK 3 L33: 0.7975 L12: -1.0691 REMARK 3 L13: -0.4013 L23: 1.7746 REMARK 3 S TENSOR REMARK 3 S11: 0.0338 S12: 0.4473 S13: 0.0195 REMARK 3 S21: -0.2784 S22: -0.0942 S23: 0.0621 REMARK 3 S31: -0.0135 S32: -0.0777 S33: -0.0044 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: chain 'A' and (resseq 1:20) REMARK 3 ORIGIN FOR THE GROUP (A): 25.8498 -0.0545 43.7907 REMARK 3 T TENSOR REMARK 3 T11: 0.3639 T22: 0.2216 REMARK 3 T33: 0.2358 T12: -0.1022 REMARK 3 T13: 0.0433 T23: -0.0825 REMARK 3 L TENSOR REMARK 3 L11: 0.4842 L22: 3.0326 REMARK 3 L33: 1.3811 L12: -1.1878 REMARK 3 L13: -0.7710 L23: 1.7568 REMARK 3 S TENSOR REMARK 3 S11: -0.2081 S12: -0.3112 S13: 0.6056 REMARK 3 S21: 0.1317 S22: 0.3421 S23: -0.6866 REMARK 3 S31: -0.2282 S32: 0.3017 S33: -0.1376 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: chain 'A' and (resseq 21:93) REMARK 3 ORIGIN FOR THE GROUP (A): 38.3658 -11.5571 28.1725 REMARK 3 T TENSOR REMARK 3 T11: 0.0516 T22: 0.1488 REMARK 3 T33: 0.0821 T12: -0.0497 REMARK 3 T13: 0.0209 T23: -0.0195 REMARK 3 L TENSOR REMARK 3 L11: 2.5738 L22: 1.1730 REMARK 3 L33: 1.1429 L12: -0.4215 REMARK 3 L13: 0.7059 L23: 0.1322 REMARK 3 S TENSOR REMARK 3 S11: 0.0234 S12: -0.0895 S13: 0.0745 REMARK 3 S21: 0.0068 S22: -0.0461 S23: -0.1925 REMARK 3 S31: -0.1534 S32: 0.1194 S33: 0.0507 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: chain 'A' and (resseq 94:126) REMARK 3 ORIGIN FOR THE GROUP (A): 57.3511 -13.1492 20.8027 REMARK 3 T TENSOR REMARK 3 T11: 0.1852 T22: 0.3696 REMARK 3 T33: 0.1919 T12: -0.0347 REMARK 3 T13: 0.0010 T23: -0.0462 REMARK 3 L TENSOR REMARK 3 L11: 2.3597 L22: 4.0134 REMARK 3 L33: 4.5337 L12: -1.1643 REMARK 3 L13: -1.9228 L23: 1.8152 REMARK 3 S TENSOR REMARK 3 S11: -0.1390 S12: 0.4533 S13: -0.2291 REMARK 3 S21: -0.7146 S22: -0.2515 S23: 0.1493 REMARK 3 S31: -0.0586 S32: -0.0794 S33: 0.1028 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: chain 'A' and (resseq 127:308) REMARK 3 ORIGIN FOR THE GROUP (A): 51.3788 -33.6737 27.5237 REMARK 3 T TENSOR REMARK 3 T11: 0.1873 T22: 0.3233 REMARK 3 T33: 0.1699 T12: 0.0917 REMARK 3 T13: -0.0293 T23: -0.0469 REMARK 3 L TENSOR REMARK 3 L11: 1.2250 L22: 1.4581 REMARK 3 L33: 1.1345 L12: 1.1351 REMARK 3 L13: -0.0303 L23: -0.1900 REMARK 3 S TENSOR REMARK 3 S11: -0.0019 S12: 0.0386 S13: -0.3449 REMARK 3 S21: -0.0870 S22: 0.0274 S23: -0.4704 REMARK 3 S31: 0.3343 S32: 0.3860 S33: -0.0387 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: chain 'A' and (resseq 309:331) REMARK 3 ORIGIN FOR THE GROUP (A): 67.6619 -29.2571 24.7875 REMARK 3 T TENSOR REMARK 3 T11: 0.1669 T22: 0.4829 REMARK 3 T33: 0.4017 T12: 0.1454 REMARK 3 T13: 0.0853 T23: -0.0621 REMARK 3 L TENSOR REMARK 3 L11: 6.2520 L22: 7.1122 REMARK 3 L33: 3.4462 L12: 3.5126 REMARK 3 L13: -2.0463 L23: -1.0297 REMARK 3 S TENSOR REMARK 3 S11: 0.2414 S12: 0.1239 S13: 0.0429 REMARK 3 S21: -0.1969 S22: -0.1216 S23: -0.7065 REMARK 3 S31: -0.0401 S32: 0.2445 S33: -0.1142 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4L4S COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JUN-13. REMARK 100 THE RCSB ID CODE IS RCSB080180. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : 0.9173 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : DIFFRACTOMETER REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 2M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23067 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 84.317 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.20300 REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.06 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.77100 REMARK 200 R SYM FOR SHELL (I) : 0.77100 REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.31 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10 % PEG 8000, 100 MM HEPES, 20 % REMARK 280 ETHYLENE GLYCOL, 10 % ACETONITRILE, PH 7.5, VAPOR DIFFUSION, REMARK 280 SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y,X,Z+1/4 REMARK 290 4555 Y,-X,Z+3/4 REMARK 290 5555 -X,Y,-Z REMARK 290 6555 X,-Y,-Z+1/2 REMARK 290 7555 Y,X,-Z+3/4 REMARK 290 8555 -Y,-X,-Z+1/4 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 138.34550 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 69.17275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 207.51825 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 138.34550 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 207.51825 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 69.17275 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17560 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 53910 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -118.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, H REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 84.31700 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU H 332 REMARK 465 GLU H 333 REMARK 465 HIS H 334 REMARK 465 HIS H 335 REMARK 465 HIS H 336 REMARK 465 HIS H 337 REMARK 465 HIS H 338 REMARK 465 HIS H 339 REMARK 465 LEU A 332 REMARK 465 GLU A 333 REMARK 465 HIS A 334 REMARK 465 HIS A 335 REMARK 465 HIS A 336 REMARK 465 HIS A 337 REMARK 465 HIS A 338 REMARK 465 HIS A 339 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLN H 16 C REMARK 480 GLN A 16 C REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O GLY A 281 NZ LYS A 316 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 VAL H 27 41.23 -105.37 REMARK 500 ASN H 87 39.37 70.10 REMARK 500 GLU H 101 109.38 -59.87 REMARK 500 SER H 248 -58.25 -134.12 REMARK 500 TYR H 280 14.76 49.90 REMARK 500 ASP H 285 75.21 -67.79 REMARK 500 GLU H 328 47.77 -100.57 REMARK 500 VAL A 27 41.26 -104.95 REMARK 500 ASN A 87 39.47 70.08 REMARK 500 SER A 248 -58.36 -133.91 REMARK 500 TYR A 280 15.74 49.75 REMARK 500 ASP A 285 76.13 -66.68 REMARK 500 GLU A 328 48.09 -98.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAI H 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NAI A 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4L4R RELATED DB: PDB REMARK 900 HUMAN LACTATE DEHYDROGENASE M, APO STRUCTURE DBREF 4L4S H 1 331 UNP P00338 LDHA_HUMAN 2 332 DBREF 4L4S A 1 331 UNP P00338 LDHA_HUMAN 2 332 SEQADV 4L4S LEU H 332 UNP P00338 EXPRESSION TAG SEQADV 4L4S GLU H 333 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 334 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 335 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 336 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 337 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 338 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS H 339 UNP P00338 EXPRESSION TAG SEQADV 4L4S LEU A 332 UNP P00338 EXPRESSION TAG SEQADV 4L4S GLU A 333 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 334 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 335 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 336 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 337 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 338 UNP P00338 EXPRESSION TAG SEQADV 4L4S HIS A 339 UNP P00338 EXPRESSION TAG SEQRES 1 H 339 ALA THR LEU LYS ASP GLN LEU ILE TYR ASN LEU LEU LYS SEQRES 2 H 339 GLU GLU GLN THR PRO GLN ASN LYS ILE THR VAL VAL GLY SEQRES 3 H 339 VAL GLY ALA VAL GLY MET ALA CYS ALA ILE SER ILE LEU SEQRES 4 H 339 MET LYS ASP LEU ALA ASP GLU LEU ALA LEU VAL ASP VAL SEQRES 5 H 339 ILE GLU ASP LYS LEU LYS GLY GLU MET MET ASP LEU GLN SEQRES 6 H 339 HIS GLY SER LEU PHE LEU ARG THR PRO LYS ILE VAL SER SEQRES 7 H 339 GLY LYS ASP TYR ASN VAL THR ALA ASN SER LYS LEU VAL SEQRES 8 H 339 ILE ILE THR ALA GLY ALA ARG GLN GLN GLU GLY GLU SER SEQRES 9 H 339 ARG LEU ASN LEU VAL GLN ARG ASN VAL ASN ILE PHE LYS SEQRES 10 H 339 PHE ILE ILE PRO ASN VAL VAL LYS TYR SER PRO ASN CYS SEQRES 11 H 339 LYS LEU LEU ILE VAL SER ASN PRO VAL ASP ILE LEU THR SEQRES 12 H 339 TYR VAL ALA TRP LYS ILE SER GLY PHE PRO LYS ASN ARG SEQRES 13 H 339 VAL ILE GLY SER GLY CYS ASN LEU ASP SER ALA ARG PHE SEQRES 14 H 339 ARG TYR LEU MET GLY GLU ARG LEU GLY VAL HIS PRO LEU SEQRES 15 H 339 SER CYS HIS GLY TRP VAL LEU GLY GLU HIS GLY ASP SER SEQRES 16 H 339 SER VAL PRO VAL TRP SER GLY MET ASN VAL ALA GLY VAL SEQRES 17 H 339 SER LEU LYS THR LEU HIS PRO ASP LEU GLY THR ASP LYS SEQRES 18 H 339 ASP LYS GLU GLN TRP LYS GLU VAL HIS LYS GLN VAL VAL SEQRES 19 H 339 GLU SER ALA TYR GLU VAL ILE LYS LEU LYS GLY TYR THR SEQRES 20 H 339 SER TRP ALA ILE GLY LEU SER VAL ALA ASP LEU ALA GLU SEQRES 21 H 339 SER ILE MET LYS ASN LEU ARG ARG VAL HIS PRO VAL SER SEQRES 22 H 339 THR MET ILE LYS GLY LEU TYR GLY ILE LYS ASP ASP VAL SEQRES 23 H 339 PHE LEU SER VAL PRO CYS ILE LEU GLY GLN ASN GLY ILE SEQRES 24 H 339 SER ASP LEU VAL LYS VAL THR LEU THR SER GLU GLU GLU SEQRES 25 H 339 ALA ARG LEU LYS LYS SER ALA ASP THR LEU TRP GLY ILE SEQRES 26 H 339 GLN LYS GLU LEU GLN PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 27 H 339 HIS SEQRES 1 A 339 ALA THR LEU LYS ASP GLN LEU ILE TYR ASN LEU LEU LYS SEQRES 2 A 339 GLU GLU GLN THR PRO GLN ASN LYS ILE THR VAL VAL GLY SEQRES 3 A 339 VAL GLY ALA VAL GLY MET ALA CYS ALA ILE SER ILE LEU SEQRES 4 A 339 MET LYS ASP LEU ALA ASP GLU LEU ALA LEU VAL ASP VAL SEQRES 5 A 339 ILE GLU ASP LYS LEU LYS GLY GLU MET MET ASP LEU GLN SEQRES 6 A 339 HIS GLY SER LEU PHE LEU ARG THR PRO LYS ILE VAL SER SEQRES 7 A 339 GLY LYS ASP TYR ASN VAL THR ALA ASN SER LYS LEU VAL SEQRES 8 A 339 ILE ILE THR ALA GLY ALA ARG GLN GLN GLU GLY GLU SER SEQRES 9 A 339 ARG LEU ASN LEU VAL GLN ARG ASN VAL ASN ILE PHE LYS SEQRES 10 A 339 PHE ILE ILE PRO ASN VAL VAL LYS TYR SER PRO ASN CYS SEQRES 11 A 339 LYS LEU LEU ILE VAL SER ASN PRO VAL ASP ILE LEU THR SEQRES 12 A 339 TYR VAL ALA TRP LYS ILE SER GLY PHE PRO LYS ASN ARG SEQRES 13 A 339 VAL ILE GLY SER GLY CYS ASN LEU ASP SER ALA ARG PHE SEQRES 14 A 339 ARG TYR LEU MET GLY GLU ARG LEU GLY VAL HIS PRO LEU SEQRES 15 A 339 SER CYS HIS GLY TRP VAL LEU GLY GLU HIS GLY ASP SER SEQRES 16 A 339 SER VAL PRO VAL TRP SER GLY MET ASN VAL ALA GLY VAL SEQRES 17 A 339 SER LEU LYS THR LEU HIS PRO ASP LEU GLY THR ASP LYS SEQRES 18 A 339 ASP LYS GLU GLN TRP LYS GLU VAL HIS LYS GLN VAL VAL SEQRES 19 A 339 GLU SER ALA TYR GLU VAL ILE LYS LEU LYS GLY TYR THR SEQRES 20 A 339 SER TRP ALA ILE GLY LEU SER VAL ALA ASP LEU ALA GLU SEQRES 21 A 339 SER ILE MET LYS ASN LEU ARG ARG VAL HIS PRO VAL SER SEQRES 22 A 339 THR MET ILE LYS GLY LEU TYR GLY ILE LYS ASP ASP VAL SEQRES 23 A 339 PHE LEU SER VAL PRO CYS ILE LEU GLY GLN ASN GLY ILE SEQRES 24 A 339 SER ASP LEU VAL LYS VAL THR LEU THR SER GLU GLU GLU SEQRES 25 A 339 ALA ARG LEU LYS LYS SER ALA ASP THR LEU TRP GLY ILE SEQRES 26 A 339 GLN LYS GLU LEU GLN PHE LEU GLU HIS HIS HIS HIS HIS SEQRES 27 A 339 HIS HET NAI H 401 44 HET NAI A 401 44 HETNAM NAI 1,4-DIHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE HETSYN NAI NADH FORMUL 3 NAI 2(C21 H29 N7 O14 P2) FORMUL 5 HOH *37(H2 O) HELIX 1 1 THR H 2 ILE H 8 1 7 HELIX 2 2 GLY H 28 LYS H 41 1 14 HELIX 3 3 ILE H 53 HIS H 66 1 14 HELIX 4 4 GLY H 67 LEU H 71 5 5 HELIX 5 5 ASP H 81 ALA H 86 5 6 HELIX 6 6 SER H 104 SER H 127 1 24 HELIX 7 7 PRO H 138 GLY H 151 1 14 HELIX 8 8 PRO H 153 ASN H 155 5 3 HELIX 9 9 CYS H 162 GLY H 178 1 17 HELIX 10 10 LEU H 210 HIS H 214 1 5 HELIX 11 11 TRP H 226 GLY H 245 1 20 HELIX 12 12 SER H 248 LYS H 264 1 17 HELIX 13 13 THR H 308 LYS H 327 1 20 HELIX 14 14 THR A 2 ILE A 8 1 7 HELIX 15 15 GLY A 28 LYS A 41 1 14 HELIX 16 16 ILE A 53 HIS A 66 1 14 HELIX 17 17 GLY A 67 LEU A 71 5 5 HELIX 18 18 ASP A 81 ALA A 86 5 6 HELIX 19 19 SER A 104 SER A 127 1 24 HELIX 20 20 PRO A 138 GLY A 151 1 14 HELIX 21 21 PRO A 153 ASN A 155 5 3 HELIX 22 22 CYS A 162 GLY A 178 1 17 HELIX 23 23 TRP A 200 GLY A 202 5 3 HELIX 24 24 LEU A 210 HIS A 214 1 5 HELIX 25 25 TRP A 226 GLY A 245 1 20 HELIX 26 26 SER A 248 LYS A 264 1 17 HELIX 27 27 THR A 308 LYS A 327 1 20 SHEET 1 A 6 LYS H 75 GLY H 79 0 SHEET 2 A 6 GLU H 46 VAL H 50 1 N LEU H 47 O LYS H 75 SHEET 3 A 6 LYS H 21 VAL H 25 1 N VAL H 24 O ALA H 48 SHEET 4 A 6 LEU H 90 ILE H 93 1 O ILE H 92 N THR H 23 SHEET 5 A 6 LYS H 131 ILE H 134 1 O LEU H 133 N VAL H 91 SHEET 6 A 6 VAL H 157 GLY H 159 1 O ILE H 158 N LEU H 132 SHEET 1 B 3 CYS H 184 LEU H 189 0 SHEET 2 B 3 VAL H 197 VAL H 205 -1 O VAL H 197 N LEU H 189 SHEET 3 B 3 VAL H 208 SER H 209 -1 O VAL H 208 N VAL H 205 SHEET 1 C 3 ARG H 268 MET H 275 0 SHEET 2 C 3 PHE H 287 GLY H 295 -1 O CYS H 292 N HIS H 270 SHEET 3 C 3 GLY H 298 LEU H 302 -1 O GLY H 298 N GLY H 295 SHEET 1 D 6 LYS A 75 GLY A 79 0 SHEET 2 D 6 GLU A 46 VAL A 50 1 N LEU A 47 O VAL A 77 SHEET 3 D 6 LYS A 21 VAL A 25 1 N VAL A 24 O ALA A 48 SHEET 4 D 6 LEU A 90 ILE A 93 1 O ILE A 92 N THR A 23 SHEET 5 D 6 LYS A 131 ILE A 134 1 O LYS A 131 N VAL A 91 SHEET 6 D 6 VAL A 157 GLY A 159 1 O ILE A 158 N ILE A 134 SHEET 1 E 3 CYS A 184 HIS A 185 0 SHEET 2 E 3 ASN A 204 VAL A 205 -1 O ASN A 204 N HIS A 185 SHEET 3 E 3 VAL A 208 SER A 209 -1 O VAL A 208 N VAL A 205 SHEET 1 F 2 VAL A 188 LEU A 189 0 SHEET 2 F 2 VAL A 197 PRO A 198 -1 O VAL A 197 N LEU A 189 SHEET 1 G 3 ARG A 268 MET A 275 0 SHEET 2 G 3 PHE A 287 GLY A 295 -1 O CYS A 292 N HIS A 270 SHEET 3 G 3 GLY A 298 LEU A 302 -1 O GLY A 298 N GLY A 295 CISPEP 1 ASN H 137 PRO H 138 0 -4.73 CISPEP 2 ASN A 137 PRO A 138 0 -5.74 SITE 1 AC1 19 GLY H 28 ALA H 29 VAL H 30 ASP H 51 SITE 2 AC1 19 VAL H 52 ILE H 53 THR H 94 ALA H 95 SITE 3 AC1 19 GLY H 96 ARG H 98 ILE H 115 VAL H 135 SITE 4 AC1 19 SER H 136 ASN H 137 SER H 160 LEU H 164 SITE 5 AC1 19 HIS H 192 ILE H 251 HOH H 502 SITE 1 AC2 19 GLY A 28 ALA A 29 VAL A 30 ASP A 51 SITE 2 AC2 19 VAL A 52 ILE A 53 THR A 94 ALA A 95 SITE 3 AC2 19 GLY A 96 ILE A 115 VAL A 135 SER A 136 SITE 4 AC2 19 ASN A 137 SER A 160 LEU A 164 HIS A 192 SITE 5 AC2 19 ILE A 251 HOH A 506 HOH A 512 CRYST1 84.317 84.317 276.691 90.00 90.00 90.00 P 41 2 2 16 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011860 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011860 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003614 0.00000 MASTER 447 0 2 27 26 0 10 6 0 0 0 54 END